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Articles 1 - 17 of 17
Full-Text Articles in Molecular Genetics
Characterization Of Ato Family Transporters In The Fungal Pathogen Cryptococcus Neoformans, Will Betsill
Characterization Of Ato Family Transporters In The Fungal Pathogen Cryptococcus Neoformans, Will Betsill
All Theses
Fungal pathogens are a significant threat to public health as they are becoming increasingly common and more resistant to treatment. Cryptococcus neoformans contributes greatly to this threat annually by causing an estimated 278,000 cases of cryptococcal meningitis resulting in approximately 181,000 deaths globally according to the CDC. C. neoformans is ubiquitous across most of the globe and can be found in such places as in trees or soil. Exposure to this fungus is especially dangerous to individuals who are immunocompromised or immunosuppressed. In these cases, inhalation of spores can lead to infection in the lungs. Once in the lungs, C. …
Use Of Foreign Edna Tracers To Resolve Site- And Time-Specific Edna Distributions In Natural Streams, Braden A. Herman
Use Of Foreign Edna Tracers To Resolve Site- And Time-Specific Edna Distributions In Natural Streams, Braden A. Herman
Cal Poly Humboldt theses and projects
Substantial uncertainty in how to interpret eDNA observations motivates a need for a technique to effectively and efficiently measure of system- and time-specific eDNA distributions. Using a technique to robustly calibrate eDNA dynamics in a given system would improve established eDNA methods such as presence and absence and has the potential to refine estimates of organism abundance using eDNA concentration that are less well understood. Particles of eDNA are present in a wide variety of size and type resulting in varying transport dynamics, persistence, decay, among others. This variation likely makes eDNA transport more complex than that of conservative tracers …
Characterization Of A Helicobacter Pylori Small Rna By Rt-Pcr, Roxanne Mcpeck, Andrea Castillo
Characterization Of A Helicobacter Pylori Small Rna By Rt-Pcr, Roxanne Mcpeck, Andrea Castillo
2022 Symposium
Helicobacter pylori, a bacterial gastric pathogen infecting approximately 50% of the human population, produces gastritis, ulcers, and gastric cancers. Colonizing the inhospitable and fluctuating environment in the stomach requires tight genetic control. However, H. pylori lacks many genetic regulatory elements present in other bacteria to control gene expression. Instead, over 200 small RNAs (sRNAs; noncoding RNAs shorter than 300 nucleotides) have been found in this bacterium, but few have been fully characterized. Of those, many are antisense to virulence genes. Characterizing these sRNAs is important in understanding the mechanisms of molecular genetics and potentially supporting medical management of this …
Immunoregulatory Receptor Genetics, Expression, And Splicing Studies In Alzheimer’S Disease, Benjamin C. Shaw
Immunoregulatory Receptor Genetics, Expression, And Splicing Studies In Alzheimer’S Disease, Benjamin C. Shaw
Theses and Dissertations--Physiology
Microglia are the resident immune cells of the brain, undertaking many critical tissue maintenance functions such as immune surveillance and phagocytosis. Microglial dysfunction has recently been identified as a multi-stage signature of many neurodegenerative diseases, including late-onset Alzheimer’s Disease (LOAD). Genome-wide association studies (GWAS) have identified single nucleotide polymorphisms (SNPs) in over thirty genes that modulate risk of developing LOAD. In the central nervous system, roughly half of these LOAD-associated genes are primarily expressed in microglia. The proteins encoded by these genes include cell surface receptors that contain either immunomodulatory tyrosine-phosphorylated activating motifs (ITAMs) or inhibitory motifs (ITIMs), including TREM2 …
Slowing Down The Clock: Cellular Senescence And Aging, Saad Bhatti
Slowing Down The Clock: Cellular Senescence And Aging, Saad Bhatti
AUCTUS: The Journal of Undergraduate Research and Creative Scholarship
No abstract provided.
An Intergrative Ecological And Taxonomic Assessment Of The Stoneflies (Insecta, Plecoptera) Of The Black Mountains, North Carolina, Usa, Madeline Lake Metzger
An Intergrative Ecological And Taxonomic Assessment Of The Stoneflies (Insecta, Plecoptera) Of The Black Mountains, North Carolina, Usa, Madeline Lake Metzger
Masters Theses & Specialist Projects
The Black Mountains are a part of the Blue Ridge region of the Appalachian Mountains and include Mount Mitchell, the highest peak east of the Mississippi River at 2,037 m (= 6,684 ft). A comprehensive inventory of the stonefly fauna was conducted between 2014-2019 within Mt. Mitchell State Park and adjacent Pisgah National Forest. Collections occurred seasonally from 44 unique locations, covering a broad range of stream sizes and elevations in the region. Sequencing of the mitochondrial cytochrome c oxidase subunit I (mtCOI) gene was completed to assist with making positive determinations to species for females of taxonomically challenging genera …
A Rapid Colorimetric Peptide Nucleic Acid Loop-Mediated Isothermal Amplification Assay For The Detection Of The Idh1 Mutation In Glioblastoma, Edward J. Raack
A Rapid Colorimetric Peptide Nucleic Acid Loop-Mediated Isothermal Amplification Assay For The Detection Of The Idh1 Mutation In Glioblastoma, Edward J. Raack
All NMU Master's Theses
The IDH1 mutation is an important diagnostic and prognostic biomarker used to characterize glioblastoma (GBM). Patients harboring the IDH1 mutation have improved overall survival following maximal resection. Knowledge of the IDH1 mutation status allows the surgeon to modify the surgical plan; however, no existing molecular test can provide this information intraoperatively. We designed a novel colorimetric peptide nucleic acid loop-mediated isothermal amplification (PNA-LAMP) method that rapidly detects the IDH1 R132H mutation in GBM. PNA-LAMP amplifies target DNA under isothermal conditions with high specificity and speed. The PNA prevents amplification of wild-type IDH1 DNA, while allowing amplification of the R132H variant …
Mrub_2052, Mrub_0628, And Mrub_2034 Genes Are Predicted To Be Orthologous To B0688, B2039, And B3789 Genes Found In Escherichia Coli, Which Are Involved In Streptomycin Biosynthesis, James P. Hartnett, Dr. Lori Scott
Mrub_2052, Mrub_0628, And Mrub_2034 Genes Are Predicted To Be Orthologous To B0688, B2039, And B3789 Genes Found In Escherichia Coli, Which Are Involved In Streptomycin Biosynthesis, James P. Hartnett, Dr. Lori Scott
Meiothermus ruber Genome Analysis Project
We predict that Mrub_2052 encodes the enzymephosphoglucomutase (DNA coordinates 2088542..2090185 on the complement strand which is the 00521 step of the Streptomycin Biosynthesis pathway (KEGG map number 5.4.2.2). It catalyzes the conversion of D-Glucose- 6P (also known as D-glucopyranose 6-phosphate) to D-Glucose-1P (also known as α-D-glucopyranose 1-phosphate). The E. coli K12 MG1655 ortholog is predicted to be b0688, which has the gene identifier pgm. We predict that Mrub__0628 encodes the enzyme glucose-1-phosphate thymidylyltransferase (DNA coordinates 605559..606635 on the complement strand, which is the 00521 step of the Streptomycin Biosynthesis pathway (KEGG map number 2.7.7.24). It catalyzes the conversion of D-Glucose-1P …
Investigation Into The Cell Wall And Cellulose Biosynthesis In Model Species And In The C4 Model Plant Setaria Viridis, Mizuki Tateno
Investigation Into The Cell Wall And Cellulose Biosynthesis In Model Species And In The C4 Model Plant Setaria Viridis, Mizuki Tateno
Theses and Dissertations--Plant and Soil Sciences
A uniform feature of all plant cells is the presence of a cell wall. The cell wall functions in facilitating directional expansion and is therefore important for cell shape and morphogenesis. All plant cell walls contain cellulose microfibrils embedded in a network of polysaccharides, lignin and protein. Cellulose is evolutionarily conserved and is made by all plants as well as other members of various taxonomic kingdoms. From a human perspective, the field of renewable energy has had an ever increasing interest in using the cell wall for production of renewable platform chemicals and fuels. However, the biosynthesis of these components …
Environmental Stimuli And Intragenerational Epigenetics, Nicholas J. Napier
Environmental Stimuli And Intragenerational Epigenetics, Nicholas J. Napier
Student Scholarship
Epigenetics is the study of any change in gene expression that is not mediated by DNA sequence. The effects of environmental stimuli on epigenetic changes have been studied extensively in recent years. Multiple reviews have provided comprehensive summations of the effects of environmental stimuli on transgenerational epigenetic changes, but few reviews have focused upon environment-induced intragenerational epigenetic changes. This review will summarize current knowledge of the intragenerational epigenetic changes that are induced by two groups of well-studied environmental stimuli: nutritional deficiencies and carcinogens. This survey of intragenerational epigenetic changes will focus upon the mechanisms behind them, the disorders associated with …
Studying Human Disease Genes In Caenorhabditis Elegans : A Molecular Genetics Laboratory Project, Elisabeth A. Cox-Paulson, Theresa M. Grana, Michelle A. Harris, Janet M. Batzli
Studying Human Disease Genes In Caenorhabditis Elegans : A Molecular Genetics Laboratory Project, Elisabeth A. Cox-Paulson, Theresa M. Grana, Michelle A. Harris, Janet M. Batzli
Biological Sciences Research
Scientists routinely integrate information from various channels to explore topics under study. We designed a 4-wk undergraduate laboratory module that used a multifaceted approach to study a question in molecular genetics. Specifcally, students investigated whether Caenorhabditis elegans can be a useful model system for studying genes associated with human disease. In a large-enrollment, sophomore-level laboratory course, groups of three to four students were assigned a gene associated with either breast cancer (brc-1), Wilson disease (cua-1), ovarian dysgenesis (fshr-1), or colon cancer (mlh-1). Students compared observable phenotypes of wild-type C. elegans and C. elegans with a homozygous deletion in the assigned …
Analysis Of The Clear Plaque Phenotype Of The Bacteriophage Hk75, Phani Chandrika Kunapuli
Analysis Of The Clear Plaque Phenotype Of The Bacteriophage Hk75, Phani Chandrika Kunapuli
Masters Theses & Specialist Projects
The growth of bacteriophage HK75 is inhibited by specific mutations in the zinc binding domain of the host RNA polymerase beta prime subunit. It shares this rare property with bacteriophage HK022 and other phages that use RNA mediated antitermination to promote early gene expression. Recent genomic analysis of HK75 and HK022 has confirmed the relatedness of these two phages and place HK75 in the lambdoid family of bacteriophages. Lambdoid phages are temperate and can adopt a lytic or lysogenic lifestyle upon infection of a suitable host. However, HK75 only forms clear plaques and thus appears to be defective in its …
Historic Genetic Structuring And Paraphyly Within The Great-Tailed Grackle, Jeffrey M. Dacosta, Walter Wehtje, John Klicka
Historic Genetic Structuring And Paraphyly Within The Great-Tailed Grackle, Jeffrey M. Dacosta, Walter Wehtje, John Klicka
Ornithology Program (HRC)
The Great-tailed Grackle (Quiscalus mexicanus) and Boat-tailed Grackle (Q. major) are sister species that have expanded their ranges during historical times. This expansion has created an area of sympatry between these species in Texas and Louisiana, and between distinctive Great-tailed Grackle subspecies in the southwestern United States and northern Mexico. We investigated the evolutionary histories of both species using mitochondrial DNA sequence data and modern phylogenetic methods. Our results reveal genetic structure within Great-tailed, but not Boat-tailed Grackles. Great-tailed Grackles are separated into two clades, but range expansion in the north has led to secondary contact …
A Cytochrome-B Perspective On Passerina Bunting Relationships, John Klicka, Adam J. Fry, Robert M. Zink, Christopher W. Thompson
A Cytochrome-B Perspective On Passerina Bunting Relationships, John Klicka, Adam J. Fry, Robert M. Zink, Christopher W. Thompson
Ornithology Program (HRC)
We sequenced the complete mitochondrial cytochrome-b gene (1,143 nucleotides) for representatives of each species in the cardinalid genera Passerina (6 species), Guiraca (1 species), and Cyanocompsa (3 species), and used a variety of phylogenetic methods to address relationships within and among genera. We determined that Passerina, as presently recognized, is paraphyletic. Lazuli Bunting (P. amoena) is sister to the much larger Blue Grosbeak (Guiraca caerulea). Indigo Bunting (P. cyanea) and Lazuli Bunting are not sister taxa as generally thought. In all weighted parsimony trees and for the gamma-corrected HKY tree, Indigo Bunting is …
New World Nine-Primaried Oscine Relationships: Constructing A Molecular Framework, John Klicka, Kevin P. Johnson, Scott M. Lanyon
New World Nine-Primaried Oscine Relationships: Constructing A Molecular Framework, John Klicka, Kevin P. Johnson, Scott M. Lanyon
Ornithology Program (HRC)
Historically, a paucity of comparative morphological characters has led to much debate regarding relationships within and among the major lineages of New World nine-primaried oscines. More recently, DNA-DNA hybridization studies have provided novel and testable hypotheses of relationships, although no consensus has been reached. For 40 songbird taxa, we obtained 1,929 base pairs (bp) of DNA sequence from the mitochondrial cytochrome-b (894 bp) and NADH dehydrogenase subunit 2 (1,035 bp) genes. Phylogenetic analyses confirm the monophyly of this assemblage as traditionally defined. The lineages delineated historically on morphological grounds are retained; finches (Fringillinae) are sister to a well-supported clade …
Evolutionary Patterns Of Morphometrics, Allozymes And Mitochondrial Dna In Thrashers (Genus Toxostoma), Robert M. Zink, Donna L. Dittmann, John Klicka, Rachelle C. Blackwell-Rago
Evolutionary Patterns Of Morphometrics, Allozymes And Mitochondrial Dna In Thrashers (Genus Toxostoma), Robert M. Zink, Donna L. Dittmann, John Klicka, Rachelle C. Blackwell-Rago
Ornithology Program (HRC)
We examined patterns of variation in skeletal morphometrics (29 characters), allozymes (34 loci), mitochondrial DNA (mtDNA) restriction sites (n = 74) and fragments (n = 395), and mtDNA sequences (1,739 bp from cytochrome b, ND2, ND6, and the control region) among all species of Toxostoma. The phenetic pattern of variation in skeletal morphometrics generally matched traditional taxonomic groupings (based on plumage patterns) with the exceptions of T. redivivum, which because of its large size clusters outside of its proper evolutionary group (lecontei), and T. occelatum, which did not cluster with T. curvirostre. Skull characters contributed highly to species discrimination, suggesting …
Evidence Supporting The Recent Origin And Species Status Of The Timberline Sparrow, John Klicka, Robert M. Zink, Jon C. Barlow, W. Bruce Mcgillivray, Terry J. Doyle
Evidence Supporting The Recent Origin And Species Status Of The Timberline Sparrow, John Klicka, Robert M. Zink, Jon C. Barlow, W. Bruce Mcgillivray, Terry J. Doyle
Ornithology Program (HRC)
The Timberline Sparrow (Spizella taverneri), although originally described as a species, is currently classified as a subspecies of the more widespread Brewer's Sparrow (S. breweri). We investigated the taxonomic status and recent evolutionary history of these species by comparison of both morphological and molecular characters. Morphometric comparisons using 6 external and 18 skeletal measurements show that S. taverneri specimens from two widely separated populations (Yukon and southwestern Alberta, Canada) are indistinguishable with respect to size yet are significantly larger (by 3%) than representatives of several breweri populations. Analysis of 1,413 base pairs of mitochondrial DNA (mtDNA) for 10 breweri and …